GREMLIN Database
YONR - SPBc2 prophage-derived uncharacterized HTH-type transcriptional regulator YonR
UniProt: O31943 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 108 (101)
Sequences: 1292 (1167)
Seq/√Len: 116.1

GREMLIN Results:

Legend: The darker and larger the blue dots, the higher coevolution strength.

Residue pairs sorted by coevolution strength:
i j Sco Prob
20_M31_Y3.3381.00
18_Q22_D2.9071.00
18_Q28_R2.8751.00
10_R35_E2.7151.00
51_N63_G2.6331.00
15_Y52_I2.4231.00
2_F6_L2.3721.00
23_F52_I2.1931.00
57_T61_L2.1481.00
27_T30_G2.0931.00
29_Q33_K2.0921.00
89_S92_Q2.0091.00
5_R59_F1.9191.00
9_C53_L1.9101.00
26_I31_Y1.8881.00
40_E43_L1.8661.00
33_K38_K1.8651.00
3_G37_G1.8531.00
99_Y102_K1.7611.00
33_K39_A1.6931.00
20_M53_L1.6001.00
28_R32_G1.5841.00
29_Q32_G1.5021.00
95_E102_K1.4911.00
30_G33_K1.4731.00
20_M49_L1.3751.00
58_D63_G1.3521.00
95_E99_Y1.2971.00
50_S63_G1.2830.99
27_T33_K1.2820.99
32_G36_I1.2660.99
98_Y102_K1.2540.99
6_L31_Y1.1950.99
43_L46_L1.1940.99
33_K36_I1.1920.99
26_I30_G1.1790.99
96_L100_L1.1740.99
88_I100_L1.1450.99
82_A85_N1.1440.99
17_Q28_R1.1340.99
15_Y23_F1.1320.99
88_I93_A1.1260.99
34_Y45_T1.1190.99
2_F43_L1.0790.98
12_S67_Q1.0480.98
45_T48_K1.0300.98
92_Q95_E1.0180.97
5_R63_G1.0130.97
46_L61_L1.0050.97
55_V59_F0.9990.97
5_R62_K0.9660.96
28_R36_I0.9660.96
2_F46_L0.9640.96
5_R65_H0.9580.96
97_L100_L0.9430.96
46_L57_T0.9430.96
95_E98_Y0.9280.95
5_R8_K0.9160.95
2_F60_L0.9080.95
85_N93_A0.9020.95
42_D45_T0.8970.95
34_Y39_A0.8840.94
15_Y19_R0.8830.94
24_L52_I0.8740.94
26_I34_Y0.8660.93
81_I87_M0.8520.93
19_R22_D0.8520.93
81_I84_Y0.8410.92
2_F53_L0.8390.92
17_Q21_A0.8300.92
19_R23_F0.8210.92
24_L49_L0.8170.91
9_C55_V0.8160.91
28_R33_K0.8160.91
41_P58_D0.8030.91
40_E45_T0.7850.90
13_K23_F0.7760.89
4_E37_G0.7740.89
27_T39_A0.7690.89
81_I85_N0.7620.88
17_Q31_Y0.7620.88
24_L53_L0.7540.88
20_M52_I0.7540.88
97_L101_L0.7510.88
92_Q99_Y0.7480.87
20_M24_L0.7440.87
34_Y41_P0.7400.87
21_A28_R0.7370.87
28_R38_K0.7320.86
85_N88_I0.7310.86
50_S57_T0.7300.86
81_I86_G0.7190.85
75_N78_E0.7140.85
27_T32_G0.7080.84
26_I29_Q0.7060.84
21_A29_Q0.7040.84
84_Y93_A0.7030.84
40_E44_K0.6920.83
25_G48_K0.6920.83
92_Q96_L0.6920.83
85_N89_S0.6820.82
46_L58_D0.6790.82
9_C52_I0.6780.82
16_S19_R0.6770.82
79_T83_G0.6740.81
32_G41_P0.6730.81
84_Y97_L0.6620.80
48_K51_N0.6590.80
76_D80_L0.6550.79
28_R31_Y0.6460.78
84_Y87_M0.6390.78
83_G87_M0.6370.77
15_Y20_M0.6290.77
86_G97_L0.6260.76
69_D74_L0.6220.76
39_A42_D0.6190.75
6_L20_M0.6170.75
21_A33_K0.6140.75
76_D79_T0.6110.74
43_L61_L0.6090.74
6_L11_T0.6060.74
6_L53_L0.6050.74
70_L77_P0.6000.73
82_A98_Y0.5990.73
32_G39_A0.5980.73
7_K10_R0.5830.71
94_K98_Y0.5830.71
90_E94_K0.5790.71
86_G92_Q0.5770.70
27_T38_K0.5570.68
67_Q72_E0.5550.67
18_Q32_G0.5550.67
95_E100_L0.5420.65
85_N99_Y0.5400.65
88_I96_L0.5350.65
96_L101_L0.5320.64
31_Y34_Y0.5320.64
97_L102_K0.5280.63
29_Q38_K0.5260.63
89_S95_E0.5260.63
30_G40_E0.5240.63
77_P80_L0.5200.62
92_Q100_L0.5200.62
29_Q36_I0.5160.62
78_E93_A0.5130.61
43_L47_T0.5130.61
21_A31_Y0.5120.61
70_L76_D0.5070.60
88_I92_Q0.5060.60
22_D25_G0.5040.60
96_L102_K0.5000.59
71_D74_L0.5000.59
Legend: The i and j are positions as given in the UniProt sequence. Only predictions with Prob ≥ 0.7 are listed. For all 3L/2 predictions, click on one of the links below.

Sco = ((raw_sco - min_sco)/(avg_sco - min_sco))/2 + 0.5
Prob = P(contact | Sco, seq80/√len)
seq80 = effective number of sequences, after reducing redundancy to 80% identity

HHsearch Results:
Legend: GREMLIN results (Prob ≥ 0.7) overlaid on top PDB hits. The grey/red filled circles underneath are pdb residue contacts (min distance < 5 Angstroms). The shade of the circles is based on the top 10 (or top 20 if e-value < 1E-20) HHsearch results which uses the overall probability and per-site alignment prob. Inter oligomeric contacts in the pdb are in shades of red.
PDB Chains Cov % HHΔ  
4ndwA 2 1 99.8 0.339 Contact Map
3r1fA 2 1 99.8 0.35 Contact Map
4o8bA 2 0.8981 99.8 0.355 Contact Map
4jcyA 2 0.8148 99.8 0.366 Contact Map
1b0nA 2 0.9259 99.8 0.374 Contact Map
3qwgA 2 0.6852 99.7 0.381 Contact Map
3op9A 4 0.9537 99.7 0.385 Contact Map
3ivpA 2 0.9537 99.7 0.393 Contact Map
2p5tA 2 0.3704 99.7 0.419 Contact Map
2ebyA 2 0.8981 99.7 0.429 Contact Map

Sequence Conservation (Image Generated using WebLogo v3)
Legend: Color is used to show Hydrophobicity (Blue: Hydrophilic, Green: Neutral and Black: Hydrophobic). Amount of gaps is represented by width.

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